Locus 2358

Sequence ID X_DroMel_CAF1
Location 6,288,946 – 6,289,062
Length 116
Max. P 0.990537
window3841 window3842

overview

Window 1

Location 6,288,946 – 6,289,062
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 79.75
Mean single sequence MFE -19.56
Consensus MFE -16.47
Energy contribution -16.81
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.84
SVM decision value 2.22
SVM RNA-class probability 0.990537
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6288946 116 + 22224390
UGAAUUUAAAAAUGUGUUUAAAAGCAUCGACUAACUAUGUAUUGUCCUAUAUAUUCAUUCAACAGCUAUUAUCCUGAAACAAAAAAACAAGGAUAUCAGCUCGUCGAAUCCUUGGG
((..((((((......))))))..))(((((....((((((......))))))..........((((..((((((..............))))))..)))).)))))......... ( -19.94)
>DroSec_CAF1 26105 94 + 1
-----------------UUAAAUCCAUCGAC----UAUUUACUUUCCUAUAUAUUCAUUCAACAGCUAUUAUCCUGAAAUAUAAAGA-AAGGAUAUCAGCUCGUCGAAUCUUUGGA
-----------------.....((((..((.----(((.((......)).))).))((((.((((((..((((((............-.))))))..)))).)).))))...)))) ( -17.42)
>DroSim_CAF1 24056 94 + 1
-----------------UUAAAUCCAUCGAC----UAUGUACUUUCCUAUAUAUUCAUUCAACAGCUAUUAUCCUGAAAUAUAAAGA-AAGGAUAUCAGCUUGUCGAAUCCUUGGA
-----------------.....((((..((.----((((((......)))))).))((((.((((((..((((((............-.))))))..))).))).))))...)))) ( -21.32)
>consensus
_________________UUAAAUCCAUCGAC____UAUGUACUUUCCUAUAUAUUCAUUCAACAGCUAUUAUCCUGAAAUAUAAAGA_AAGGAUAUCAGCUCGUCGAAUCCUUGGA
..........................(((((....((((((......))))))..........((((..((((((..............))))))..)))).)))))......... (-16.47 = -16.81 +   0.33)

alignment

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secondary structure

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dotplot

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Window 2

Location 6,288,946 – 6,289,062
Length 116
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 79.75
Mean single sequence MFE -21.76
Consensus MFE -18.54
Energy contribution -18.54
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.85
SVM decision value 1.04
SVM RNA-class probability 0.905430
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6288946 116 - 22224390
CCCAAGGAUUCGACGAGCUGAUAUCCUUGUUUUUUUGUUUCAGGAUAAUAGCUGUUGAAUGAAUAUAUAGGACAAUACAUAGUUAGUCGAUGCUUUUAAACACAUUUUUAAAUUCA
.......(((((((.(((((.((((((..............)))))).))))))))))))((((......((((((.....))).))).......(((((......))))))))). ( -21.64)
>DroSec_CAF1 26105 94 - 1
UCCAAAGAUUCGACGAGCUGAUAUCCUU-UCUUUAUAUUUCAGGAUAAUAGCUGUUGAAUGAAUAUAUAGGAAAGUAAAUA----GUCGAUGGAUUUAA-----------------
((((...(((((((.(((((.((((((.-............)))))).))))))))))))((.(((.((......)).)))----.))..)))).....----------------- ( -21.72)
>DroSim_CAF1 24056 94 - 1
UCCAAGGAUUCGACAAGCUGAUAUCCUU-UCUUUAUAUUUCAGGAUAAUAGCUGUUGAAUGAAUAUAUAGGAAAGUACAUA----GUCGAUGGAUUUAA-----------------
((((...((((((((.((((.((((((.-............)))))).))))))))))))((...(((.(.......))))----.))..)))).....----------------- ( -21.92)
>consensus
UCCAAGGAUUCGACGAGCUGAUAUCCUU_UCUUUAUAUUUCAGGAUAAUAGCUGUUGAAUGAAUAUAUAGGAAAGUACAUA____GUCGAUGGAUUUAA_________________
.......(((((((.(((((.((((((..............)))))).))))))))))))........................................................ (-18.54 = -18.54 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:40 2006